/******************************************************************************
	This file is a part of the Snapshot Bioinformatics Project

	Copyright (C) 2012-2013 Jarom Schow

	This program is free software: you can redistribute it and/or modify
	it under the terms of the GNU General Public License as published by
	the Free Software Foundation, either version 3 of the License, or
	(at your option) any later version.

	This program is distributed in the hope that it will be useful,
	but WITHOUT ANY WARRANTY; without even the implied warranty of
	MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
	GNU General Public License for more details.

	You should have received a copy of the GNU General Public License
	along with this program.  If not, see <http://www.gnu.org/licenses/>.
******************************************************************************/
#ifndef SEQ_LOCATION_H
#define SEQ_LOCATION_H

#include "BioDefs.h"

#include <QtCore/QString>

namespace Bio {

class BIO_EXPORT SeqLocation {
public:
	enum Strand { Unknown, Positive, Negative };

	SeqLocation();
	SeqLocation( int start, int end );
	SeqLocation( int start, int end, Strand strand );
	virtual ~SeqLocation();

	int		getStart() const;
	void	setStart( int start );

	int		getEnd() const;
	void	setEnd( int end );

	Strand	getStrand() const;
	void	setStrand( Strand strand );
	void	switchStrand();

	QString	getReference() const;
	void	setReference( const QString &ref );

	QString	getReferenceDb() const;
	void	setReferenceDb( const QString &refDb );

	QString	toString() const;

private:
	
	int		m_start, m_end;
	Strand	m_strand;
	QString	m_ref, m_refDb;
};

}; // Bio

#endif // SEQ_LOCATION_H